Poster: In silico microarray algorithm: Accurate and fast taxonomic profiling from short read sequences

Author

Tagami, Tomoya ; Hachiya, Tsuyoshi ; Sakakibara, Yasubumi

Author_Institution

Biosci. & Inf., Keio Univ., Yokohama, Japan

fYear

2012

fDate

23-25 Feb. 2012

Firstpage

1

Lastpage

1

Abstract

We here propose a novel algorithm that can accurately estimate taxonomic composition of microbial communities from massive amount of short read sequences (60-120 bp). Our accuracy evaluation based on simulated datasets demonstrated that our method achieves much higher accuracies than previously proposed methods including Taxy, Qin´s method and RDPClassifier. The source code is freely available under GNU Public Licence (GPL) from http://ism.dna.bio.keio.ac.jp.

Keywords

bioinformatics; genomics; Qins method; RDPClassifler; accuracy evaluation; accurate taxonomic profiling; estimate taxonomic composition; fast taxonomic profiling; in silico microarray algorithm; microbial communities; short read sequences; simulated datasets; source code; Accuracy; Bioinformatics; Biological system modeling; Communities; Correlation; Genomics; Microorganisms; metagenomics; microbial community; next-generation sequencers; taxonomic profiling;

fLanguage

English

Publisher

ieee

Conference_Titel

Computational Advances in Bio and Medical Sciences (ICCABS), 2012 IEEE 2nd International Conference on

Conference_Location

Las Vegas, NV

Print_ISBN

978-1-4673-1320-9

Electronic_ISBN

978-1-4673-1319-3

Type

conf

DOI

10.1109/ICCABS.2012.6182660

Filename

6182660